search

ComputationalCryoEM / ASPIRE-Python

Algorithms for Single Particle Reconstruction
http://spr.math.princeton.edu
GNU General Public License v3.0
49 stars 21 forks source link

Add Contrast Correction to Cov 2D #918

Open garrettwrong opened 1 year ago

garrettwrong commented 1 year ago

Add amplitude/contrast correction method from Yunpeng to cov 2d code.

https://github.com/yunpeng-shi/fast-cryoEM-PCA/blob/main/fast_cryo_pca.py#L862

Ostensibly, there are two distinct outputs we probably want to expose. i) just the correction factors (ie preprocessing). ii) apply to denoising.

Yunpeng reported there was some small improvement over the existing cov2d. Based on his description of the method I'm inclined to believe this would be a useful addition that we should make time for after the larger basis project.

janden commented 1 year ago

Agreed, but it's definitely in the nice-to-have category for now.